LAGLIDADG homing endonuclease (LHE) databases | Genome engineering

Meganucleases are important tools for genome engineering, providing an efficient way to generate DNA double-strand breaks at specific loci of interest. Numerous experimental efforts, ranging from in vivo selection to in silico modeling, have been made to re-engineer meganucleases to target relevant DNA sequences.

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Aims to provide a consensus structure for each subgroup of group I introns based on high quality alignments. GISSD is a specialized and comprehensive database for group I introns, focusing on the integration of useful group I intron information from available databases and providing de novo data that is essential for understanding these introns at a systematic level. This database presents 1789 complete intron records, including the nucleotide sequence of each annotated intron plus 15 nt of the upstream and downstream exons, and the pseudoknots-containing secondary structures predicted by integrating comparative sequence analyses and minimal free energy algorithms.

Presents general information as well as detailed data for each intein, including tabulated comparisons and a comprehensive bibliography. InBase is a curated compilation of published and unpublished information about protein splicing. Compiles information about inteins, often submitted by researchers prior to publication. Searches of general sequence databases often yield hits with very low scores and low probability values due to (i) the small size of mini-inteins (as few as 134 amino acids), (ii) the low level of sequence similarity even in conserved motifs and (iii) the high degree of polymorphisms in conserved splice junction residues.

A comprehensive and fully curated database of information about the components of restriction-modification (RM) systems. REBASE contains fully referenced information about recognition and cleavage sites for both restriction enzymes and methyltransferases as well as commercial availability, methylation sensitivity, crystal and sequence data. From the REBASE website users have a variety of resources available that facilitate the analysis of sequence information, including tools for analyzing sequences (REBASE TOOLS), that allow restriction enzyme recognition sites to be found in submitted sequences (NEBCUTTER) and an implementation of BLAST to allow searching against all sequences in REBASE.

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